genome.fa.s112.2.7.7.80.10.50.1000.23.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  35885061

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   

This is table  23  of  195  ( 23297 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5289446--5289745	125	2.4	125	78	5	291	46	4	6	43	1.50
5290282--5290310	2	14.5	2	100	0	58	48	0	0	51	1.00
5298486--5298599	31	3.6	31	82	5	140	42	7	1	48	1.40
5299453--5299490	16	2.6	14	88	12	51	44	0	2	52	1.14
5299464--5299518	20	2.8	19	78	13	58	47	0	5	47	1.25
5299516--5299567	20	2.9	17	73	15	50	57	0	0	42	0.98
5299842--5299902	14	4.1	14	75	8	50	59	0	1	39	1.08
5312387--5312411	13	1.9	13	100	0	50	8	0	8	84	0.79
5314802--5314849	22	2.1	23	85	11	64	22	0	6	70	1.09
5314812--5314866	24	2.3	23	81	12	58	23	0	3	72	1.00
5316610--5316676	26	2.8	25	80	15	79	38	0	0	61	0.96
5316627--5316685	12	4.6	13	73	23	54	37	0	0	62	0.95
5318630--5318688	12	4.6	13	72	16	52	35	0	1	62	1.05
5320443--5320603	73	2.2	73	80	5	166	36	9	5	48	1.60
5323453--5323491	18	2.2	18	85	0	51	20	33	17	28	1.96
5325681--5325718	5	7.8	5	82	5	51	21	0	0	78	0.74
5325784--5325881	27	3.6	27	71	9	74	54	2	2	41	1.23
5326231--5326268	19	2.0	20	89	5	60	65	0	0	34	0.93
5334498--5334542	19	2.3	19	81	11	56	26	4	0	68	1.08
5334507--5334542	18	1.9	18	88	5	54	25	5	0	69	1.10
5335353--5335383	11	2.8	11	90	0	53	38	3	0	58	1.15
5349165--5349208	23	1.9	23	85	0	61	38	2	4	54	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5350109--5350146	17	2.2	17	86	9	51	60	10	2	26	1.43
5350153--5350189	18	2.1	18	100	0	74	32	16	8	43	1.77
5350653--5350697	22	2.0	22	84	16	58	57	8	2	31	1.41
5350777--5350810	17	2.1	17	94	5	61	35	5	0	58	1.22
5350926--5350963	17	2.3	17	86	4	51	68	0	2	28	1.03
5356265--5356331	3	22.7	3	96	3	127	68	0	0	31	0.90
5357693--5357740	22	2.3	21	80	16	55	47	2	6	43	1.40
5357693--5357741	21	2.3	22	83	13	59	48	2	6	42	1.39
5357779--5357811	15	2.2	15	94	0	57	36	0	0	63	0.95
5357828--5357932	27	3.7	31	76	22	90	46	1	0	50	1.18
5358197--5358255	31	1.9	31	86	6	84	32	0	6	61	1.22
5359169--5359219	21	2.3	23	86	6	70	33	1	25	39	1.67
5361238--5361275	2	19.0	2	100	0	76	0	0	50	50	1.00
5362682--5362846	82	2.0	82	97	0	312	29	16	13	40	1.87
5371673--5371712	17	2.4	17	95	0	71	12	35	10	42	1.76
5404797--5404829	14	2.4	14	90	5	50	39	0	3	57	1.14
5404815--5404882	16	4.5	15	71	10	50	48	0	2	48	1.16
5404815--5404873	16	3.8	16	73	8	59	49	0	1	49	1.11
5404808--5404882	30	2.5	30	78	2	80	49	0	2	48	1.15
5404936--5404969	18	2.0	16	88	11	50	44	0	0	55	0.99
5416604--5416690	41	2.1	42	91	2	140	28	12	12	45	1.79
5418371--5418429	11	5.1	11	79	8	64	47	6	3	42	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5418375--5418421	22	2.1	22	92	7	78	48	6	4	40	1.48
5418815--5418852	4	9.8	4	82	5	51	71	0	0	28	0.87
5418815--5418855	20	2.0	20	86	9	57	70	0	0	29	0.87
5419471--5419646	56	3.2	55	72	10	146	28	4	6	60	1.40
5419487--5419642	56	2.9	53	78	6	170	27	5	6	60	1.42
5421667--5421706	7	5.7	7	96	0	71	17	27	25	30	1.97
5434542--5434587	25	1.9	25	82	8	60	26	0	8	65	1.21
5437071--5437459	70	5.5	73	77	9	317	38	8	6	46	1.60
5437084--5437361	143	2.0	141	86	5	391	38	7	6	47	1.58
5437071--5437449	72	5.3	72	77	7	348	38	8	5	46	1.59
5437667--5437701	14	2.4	15	95	4	63	74	0	2	22	0.95
5445398--5445491	30	3.2	29	69	16	84	58	0	3	38	1.14
5445408--5445503	30	3.2	29	70	21	81	54	0	3	42	1.16
5445377--5445498	60	2.0	60	90	3	192	55	0	3	40	1.16
5445475--5445514	12	3.2	12	82	3	53	45	0	0	55	0.99
5446162--5446227	21	3.1	22	74	10	66	46	1	1	50	1.20
5446169--5446255	31	2.7	32	76	18	83	45	1	2	50	1.21
5448489--5448534	18	2.5	18	89	3	65	63	4	0	32	1.14
5448712--5448751	3	13.3	3	100	0	80	35	0	0	65	0.93
5449829--5449869	21	2.0	20	86	13	57	51	4	0	43	1.23
5456268--5456337	3	22.7	3	83	11	88	68	2	0	28	1.04
5456253--5456342	12	7.5	11	83	13	83	67	2	2	27	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5457124--5457565	226	2.0	227	91	1	726	36	13	16	33	1.88
5457959--5458101	64	2.2	64	80	6	155	53	13	13	20	1.73
5458235--5458376	59	2.4	60	80	4	171	47	5	19	27	1.72
5460985--5461041	29	2.0	29	85	0	78	40	14	10	35	1.80
5465834--5465881	18	2.7	18	81	15	55	72	2	2	22	1.05
5465847--5465882	18	1.9	19	88	5	56	75	2	2	19	1.06
5465833--5465889	13	4.2	13	76	17	53	73	1	3	21	1.07
5467554--5467578	10	2.5	10	100	0	50	88	0	12	0	0.53
5472643--5472672	15	2.0	15	93	0	51	36	3	0	60	1.14
5473143--5473223	23	4.0	21	75	25	84	44	0	0	55	0.99
5473187--5473235	23	2.1	24	85	11	66	46	2	0	51	1.12
5474269--5474293	7	3.6	7	100	0	50	60	0	0	40	0.97
5478837--5478966	65	2.0	64	92	1	215	23	33	10	31	1.89
5483092--5483142	22	2.1	23	79	17	59	58	3	0	37	1.16
5483106--5483147	22	2.0	22	90	4	68	61	4	0	33	1.17
5483109--5483157	22	2.3	20	78	18	55	63	4	0	32	1.13
5484135--5484185	18	2.8	18	80	11	59	25	1	3	68	1.17
5484540--5484584	16	2.8	16	82	3	54	48	31	0	20	1.49
5484602--5484643	15	2.9	14	82	6	57	47	30	0	21	1.51
5497160--5498459	109	11.9	109	81	4	1338	21	18	12	47	1.82
5497325--5497398	38	2.0	38	83	2	96	25	16	5	52	1.64
5497152--5498459	218	6.0	217	85	2	1534	21	18	12	47	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5498757--5498843	45	1.9	45	92	0	147	22	13	12	50	1.76
5500785--5500824	16	2.4	16	91	4	62	52	25	0	22	1.47
5500843--5500884	15	2.9	14	86	6	57	45	28	2	23	1.66
5500865--5500903	20	2.0	20	90	10	62	51	23	2	23	1.61
5500788--5500975	58	3.2	58	74	15	147	47	26	1	25	1.61
5503420--5503703	141	2.0	141	100	0	568	21	25	16	36	1.94
5514117--5514158	13	3.2	13	80	16	50	69	0	0	30	0.89
5514120--5514159	19	2.0	21	90	9	66	65	0	0	35	0.93
5514197--5514238	15	2.8	15	82	10	59	54	0	0	45	0.99
5514284--5514308	13	1.9	13	100	0	50	32	0	4	64	1.12
5518333--5518359	6	4.5	6	100	0	54	55	0	0	44	0.99
5518331--5518372	12	3.4	13	87	9	61	52	0	0	47	1.00
5521960--5521988	2	14.5	2	100	0	58	48	0	0	51	1.00
5522049--5522114	31	2.1	32	88	2	98	33	9	7	50	1.62
5523949--5524017	23	2.9	23	75	21	79	46	1	0	52	1.09
5523951--5524003	26	2.0	27	85	7	74	43	1	0	54	1.11
5530560--5530604	18	2.5	18	82	7	56	28	2	51	17	1.58
5534691--5534726	2	19.0	2	88	11	58	50	0	0	50	1.00
5535863--5535894	15	2.0	17	88	11	50	62	3	0	34	1.11
5536544--5536572	3	9.7	3	100	0	58	31	0	0	68	0.89
5538590--5538622	2	16.5	2	100	0	66	48	0	0	51	1.00
5541121--5541154	16	2.1	16	88	5	50	32	2	5	58	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5541137--5541244	10	10.5	10	71	11	67	36	3	8	51	1.50
5541137--5541266	21	6.2	21	80	7	104	34	3	9	53	1.49
5541112--5541207	11	8.6	11	69	25	60	35	3	8	53	1.47
5541151--5541272	42	2.9	40	77	8	120	34	2	11	51	1.51
5541414--5541438	13	1.9	13	100	0	50	16	12	0	72	1.13
5541549--5541704	22	7.1	22	73	2	89	41	8	4	45	1.56
5541813--5541895	22	3.8	22	74	6	69	40	8	4	45	1.56
5541842--5541906	22	3.0	22	77	8	78	38	7	6	47	1.57
5541824--5541930	44	2.4	44	81	3	126	38	8	5	47	1.57
5541951--5542007	22	2.6	21	75	8	60	43	8	3	43	1.52

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195